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Literature summary extracted from

  • Del Arco, J.; Perona, A.; Gonzalez, L.; Fernandez-Lucas, J.; Gago, F.; Sanchez-Murcia, P.A.
    Reaction mechanism of nucleoside 2-deoxyribosyltransferases free-energy landscape supports an oxocarbenium ion as the reaction intermediate (2019), Org. Biomol. Chem., 17, 7891-7899 .
    View publication on PubMed

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
2.4.2.6 analysis of the crystal structures with PDB IDs 1F8X and 1F8Y Lactobacillus leichmannii

Protein Variants

EC Number Protein Variants Comment Organism
2.4.2.6 E98D site-directed mutagenesis, molecular docking study Lactobacillus leichmannii
2.4.2.6 M125Nle site-directed mutagenesis, molecular docking study Lactobacillus leichmannii
2.4.2.6 Y7A site-directed mutagenesis, molecular docking study Lactobacillus leichmannii

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.4.2.6 2-deoxy-D-ribosyl-base1 + base2 Lactobacillus leichmannii
-
2-deoxy-D-ribosyl-base2 + base1
-
?

Organism

EC Number Organism UniProt Comment Textmining
2.4.2.6 Lactobacillus leichmannii Q9R5V5
-
-

Reaction

EC Number Reaction Comment Organism Reaction ID
2.4.2.6 2-deoxy-D-ribosyl-base1 + base2 = 2-deoxy-D-ribosyl-base2 + base1 reaction mechanism with oxocarbenium ion as the reaction intermediate, overview Lactobacillus leichmannii

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.4.2.6 2'-deoxyinosine + adenine
-
Lactobacillus leichmannii 2'-deoxyadenosine + hypoxanthine
-
?
2.4.2.6 2-deoxy-D-ribosyl-base1 + base2
-
Lactobacillus leichmannii 2-deoxy-D-ribosyl-base2 + base1
-
?

Synonyms

EC Number Synonyms Comment Organism
2.4.2.6 LlNDT
-
Lactobacillus leichmannii
2.4.2.6 NDT
-
Lactobacillus leichmannii
2.4.2.6 nucleoside 2'-deoxyribosyltransferase
-
Lactobacillus leichmannii

General Information

EC Number General Information Comment Organism
2.4.2.6 additional information reaction mechanism of nucleoside 2'-deoxyribosyltransferases, a free-energy landscape supports an oxocarbenium ion as the reaction intermediate. Structure-function analysis of wild-type and mutant enzymes using enzyme crystal structures (PDB IDs 1F8X and 1F8Y), QM/MM MD simulations, overview Lactobacillus leichmannii